Western scholars who separate between science and religion have brought people in the final point of civilization. Therefore, the duty of Moslem scholar in the 21th century is to rebuild the spiritual intellectual integrity in the frame of science and civilization. The main responsibility of Moslem scholars, nowadays, in reaching the brightness of life is reconstructing science paradigm by relocating God as the main stream of thought. The bright time of Madinah civilization is the starting point of the glory of Islamic civilization which successfully has entered all over the world. Therefore, intellectual orientation which has become Moslem’s responsibility is to reform the principles of Madinah civilization to be reconstructed to the present time. This is very important issue as Madinah civilization has not established yet that will be possible for Moslem scholars can speak much about the 21th century civilization.  At the beginning of Islam period, the fight proposed by Moslem scholars was deconstructed the Jahiliyah’s way of thinking, furthermore, the great jihad of Moslem scholars in the present time is reconstructing the scientific way of thinking which is currently empirical-minded. Moreover, the Moslem scholar’s responsibility is to present spiritualism in scientific discourse. The integration of science and religion has become conceptualization of his science, hence, al Quran will be always the eternal source of science.